BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy6150
(148 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3OKW|A Chain A, Mouse Semaphorin 6a, Extracellular Domains 1-2
pdb|3OKW|B Chain B, Mouse Semaphorin 6a, Extracellular Domains 1-2
pdb|3OKY|B Chain B, Plexin A2 In Complex With Semaphorin 6a
Length = 565
Score = 62.0 bits (149), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 29/62 (46%), Positives = 41/62 (66%), Gaps = 1/62 (1%)
Query: 41 TKKNAVYSRVARVCKSDKGGPHHFGDR-WTTFLKSRLNCSVPGDYPFYFDEIRLPEDCVN 99
T V+ RVA+VCK+D GG ++ WT+FLK+RLNCSVPGD FYF+ ++ D +
Sbjct: 230 TMGKVVFPRVAQVCKNDMGGSQRVLEKQWTSFLKARLNCSVPGDSHFYFNILQAVTDVIR 289
Query: 100 LQ 101
+
Sbjct: 290 IN 291
Score = 25.8 bits (55), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 17/40 (42%), Gaps = 3/40 (7%)
Query: 105 CAWDLKLRKDCVNLQDPYCAWDLKLRKCV---PYQERTLE 141
C K +K C+ +DPYC W + C P T E
Sbjct: 500 CERHGKCKKTCIASRDPYCGWVRESGSCAHLSPLSRLTFE 539
>pdb|3AFC|A Chain A, Mouse Semaphorin 6a Extracellular Domain
pdb|3AFC|B Chain B, Mouse Semaphorin 6a Extracellular Domain
pdb|3AL8|A Chain A, Plexin A2 SEMAPHORIN 6A COMPLEX
Length = 556
Score = 62.0 bits (149), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 29/62 (46%), Positives = 41/62 (66%), Gaps = 1/62 (1%)
Query: 41 TKKNAVYSRVARVCKSDKGGPHHFGDR-WTTFLKSRLNCSVPGDYPFYFDEIRLPEDCVN 99
T V+ RVA+VCK+D GG ++ WT+FLK+RLNCSVPGD FYF+ ++ D +
Sbjct: 231 TMGKVVFPRVAQVCKNDMGGSQRVLEKQWTSFLKARLNCSVPGDSHFYFNILQAVTDVIR 290
Query: 100 LQ 101
+
Sbjct: 291 IN 292
>pdb|1Q47|A Chain A, Structure Of The Semaphorin 3a Receptor-Binding Module
pdb|1Q47|B Chain B, Structure Of The Semaphorin 3a Receptor-Binding Module
Length = 495
Score = 52.4 bits (124), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 28/70 (40%), Positives = 43/70 (61%), Gaps = 9/70 (12%)
Query: 25 FQSTSIDGVDHVWTQLTKKNAVYSRVARVCKSDKGGPHHFGDRWTTFLKSRLNCSVPGDY 84
F+ +IDG +H A ++R+ ++CK+D GG ++WTTFLK+RL CSVPG
Sbjct: 222 FRENAIDG-EH------SGKATHARIGQICKNDFGGHRSLVNKWTTFLKARLICSVPGPN 274
Query: 85 PF--YFDEIR 92
+FDE++
Sbjct: 275 GIDTHFDELQ 284
>pdb|4GZ8|A Chain A, Mouse Semaphorin 3a, Domains Sema-Psi-Ig
pdb|4GZ8|B Chain B, Mouse Semaphorin 3a, Domains Sema-Psi-Ig
Length = 667
Score = 52.0 bits (123), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 28/70 (40%), Positives = 43/70 (61%), Gaps = 9/70 (12%)
Query: 25 FQSTSIDGVDHVWTQLTKKNAVYSRVARVCKSDKGGPHHFGDRWTTFLKSRLNCSVPGDY 84
F+ +IDG +H A ++R+ ++CK+D GG ++WTTFLK+RL CSVPG
Sbjct: 230 FRENAIDG-EH------SGKATHARIGQICKNDFGGHRSLVNKWTTFLKARLICSVPGPN 282
Query: 85 PF--YFDEIR 92
+FDE++
Sbjct: 283 GIDTHFDELQ 292
>pdb|4GZA|G Chain G, Complex Of Mouse Plexin A2 - Semaphorin 3a - Neuropilin-1
Length = 538
Score = 52.0 bits (123), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 28/70 (40%), Positives = 43/70 (61%), Gaps = 9/70 (12%)
Query: 25 FQSTSIDGVDHVWTQLTKKNAVYSRVARVCKSDKGGPHHFGDRWTTFLKSRLNCSVPGDY 84
F+ +IDG +H A ++R+ ++CK+D GG ++WTTFLK+RL CSVPG
Sbjct: 230 FRENAIDG-EH------SGKATHARIGQICKNDFGGHRSLVNKWTTFLKARLICSVPGPN 282
Query: 85 PF--YFDEIR 92
+FDE++
Sbjct: 283 GIDTHFDELQ 292
>pdb|1OLZ|A Chain A, The Ligand-Binding Face Of The Semaphorins Revealed By The
High Resolution Crystal Structure Of Sema4d
pdb|1OLZ|B Chain B, The Ligand-Binding Face Of The Semaphorins Revealed By The
High Resolution Crystal Structure Of Sema4d
pdb|3OL2|A Chain A, Receptor-Ligand Structure Of Human Semaphorin 4d With
Plexin B1
Length = 663
Score = 48.9 bits (115), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 36/106 (33%), Positives = 52/106 (49%), Gaps = 13/106 (12%)
Query: 7 WSTPSLDEVNLCCRGSVRFQSTSIDGVD-HVWTQLTKKNAVYS--------RVARVCKSD 57
++ P L+E + +R S DG D V+ T+ + Y R+ARVCK D
Sbjct: 180 YAIPWLNEPSFVFADVIRKSPDSPDGEDDRVYFFFTEVSVEYEFVFRVLIPRIARVCKGD 239
Query: 58 KGGPHHFGDRWTTFLKSRLNCSVPGDYPFYFDEIRLPEDCVNLQDP 103
+GG +WT+FLK+RL CS P D F+ +R D L+ P
Sbjct: 240 QGGLRTLQKKWTSFLKARLICSRP-DSGLVFNVLR---DVFVLRSP 281
Score = 28.1 bits (61), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 113 KDCVNLQDPYCAWDLKLRKCVPYQE 137
+DCV +DPYCAW CV +
Sbjct: 489 EDCVLARDPYCAWSPPTATCVALHQ 513
Score = 28.1 bits (61), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 10/13 (76%), Positives = 11/13 (84%)
Query: 95 EDCVNLQDPYCAW 107
EDCV +DPYCAW
Sbjct: 489 EDCVLARDPYCAW 501
>pdb|3NVN|A Chain A, Molecular Mechanism Of Guidance Cue Recognition
Length = 389
Score = 37.0 bits (84), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 36/74 (48%), Gaps = 7/74 (9%)
Query: 16 NLCCRGSVRFQSTSIDGV-DHVW-----TQLTKKNAVYSRVARVCKSDKGGPHHFGD-RW 68
N+ + VR DG D V+ T TK+ +A++C +D+GGP RW
Sbjct: 138 NVIPKDGVRGAFVDKDGTYDKVYILFTDTIDTKRIVKIPYIAQMCLNDEGGPSSLSSHRW 197
Query: 69 TTFLKSRLNCSVPG 82
+TFLK L C + G
Sbjct: 198 STFLKVELECDIDG 211
>pdb|3NVX|A Chain A, Molecular Mechanism Of Guidance Cue Recognition
pdb|3NVX|B Chain B, Molecular Mechanism Of Guidance Cue Recognition
Length = 383
Score = 36.2 bits (82), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 22/34 (64%), Gaps = 1/34 (2%)
Query: 50 VARVCKSDKGGPHHFGD-RWTTFLKSRLNCSVPG 82
+A++C +D+GGP RW+TFLK L C + G
Sbjct: 178 IAQMCLNDEGGPSSLSSHRWSTFLKVELECDIDG 211
>pdb|3NVQ|A Chain A, Molecular Mechanism Of Guidance Cue Recognition
pdb|3NVQ|E Chain E, Molecular Mechanism Of Guidance Cue Recognition
Length = 590
Score = 34.7 bits (78), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 22/33 (66%), Gaps = 1/33 (3%)
Query: 48 SRVARVCKSDKGGPHHFG-DRWTTFLKSRLNCS 79
SRVA++C+ D+GG +W TFLK+ L CS
Sbjct: 216 SRVAQLCRGDQGGESSLSVSKWNTFLKAMLVCS 248
>pdb|1PFX|C Chain C, Porcine Factor Ixa
pdb|1X7A|C Chain C, Porcine Factor Ixa Complexed To 1-{3-[amino(Imino)
Methyl]phenyl}-N-[4-(1h-Benzimidazol-1-Yl)-2-
Fluorophenyl]-
3-(Trifluoromethyl)-1h-Pyrazole-5-Carboxamide
Length = 235
Score = 28.9 bits (63), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%), Gaps = 4/38 (10%)
Query: 54 CKSDKGGPHHFGDRWTTFLKSRLN----CSVPGDYPFY 87
C+ D GGPH T+FL ++ C+V G Y Y
Sbjct: 181 CQGDSGGPHVTEVEGTSFLTGIISWGEECAVKGKYGIY 218
>pdb|1GKT|A Chain A, Neutron Laue Diffraction Structure Of Endothiapepsin
Complexed With Transition State Analogue Inhibitor H261
Length = 329
Score = 28.1 bits (61), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 33/73 (45%), Gaps = 9/73 (12%)
Query: 21 GSVRFQSTSIDGVDHVWTQL-----TKKNAVYSRVARVCKSDKGGPHHFGDRWT----TF 71
GS F+STSIDG+ T L T +A +++V+ S G + F T TF
Sbjct: 204 GSGTFKSTSIDGIADTGTTLLYLPATVVSAYWAQVSGAKSSSSVGGYVFPCSATLPSFTF 263
Query: 72 LKSRLNCSVPGDY 84
+PGDY
Sbjct: 264 GVGSARIVIPGDY 276
>pdb|1GVT|A Chain A, Endothiapepsin Complex With Cp-80,794
pdb|1GVU|A Chain A, Endothiapepsin Complex With H189
pdb|1GVV|A Chain A, Five Atomic Resolution Structures Of Endothiapepsin
Inhibitor Complexes; Implications For The Aspartic
Proteinase Mechanism
pdb|1GVW|A Chain A, Endothiapepsin Complex With Pd-130,328
pdb|1GVX|A Chain A, Endothiapepsin Complexed With H256
pdb|1OEX|A Chain A, Atomic Resolution Structure Of Endothiapepsin In Complex
With A Hydroxyethylene Transition State Analogue
Inhibitor H261
pdb|2JJI|A Chain A, Endothiapepsin In Complex With A Gem-Diol Inhibitor.
pdb|2JJJ|A Chain A, Endothiapepsin In Complex With A Gem-Diol Inhibitor.
pdb|2VS2|A Chain A, Neutron Diffraction Structure Of Endothiapepsin In Complex
With A Gem- Diol Inhibitor.
pdb|3URJ|A Chain A, Type Iv Native Endothiapepsin
pdb|3URI|A Chain A, Endothiapepsin-Db5 Complex.
pdb|3URL|A Chain A, Endothiapepsin-Db6 Complex.
pdb|1OEW|A Chain A, Atomic Resolution Structure Of Native Endothiapepsin
Length = 329
Score = 28.1 bits (61), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 33/73 (45%), Gaps = 9/73 (12%)
Query: 21 GSVRFQSTSIDGVDHVWTQL-----TKKNAVYSRVARVCKSDKGGPHHFGDRWT----TF 71
GS F+STSIDG+ T L T +A +++V+ S G + F T TF
Sbjct: 204 GSGTFKSTSIDGIADTGTTLLYLPATVVSAYWAQVSGAKSSSSVGGYVFPCSATLPSFTF 263
Query: 72 LKSRLNCSVPGDY 84
+PGDY
Sbjct: 264 GVGSARIVIPGDY 276
>pdb|1EPR|E Chain E, Endothia Aspartic Proteinase (Endothiapepsin) Complexed
With Pd-135, 040
Length = 330
Score = 28.1 bits (61), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 33/73 (45%), Gaps = 9/73 (12%)
Query: 21 GSVRFQSTSIDGVDHVWTQL-----TKKNAVYSRVARVCKSDKGGPHHFGDRWT----TF 71
GS F+STSIDG+ T L T +A +++V+ S G + F T TF
Sbjct: 205 GSGTFKSTSIDGIADTGTTLLYLPATVVSAYWAQVSGAKSSSSVGGYVFPCSATLPSFTF 264
Query: 72 LKSRLNCSVPGDY 84
+PGDY
Sbjct: 265 GVGSARIVIPGDY 277
>pdb|1ER8|E Chain E, The Active Site Of Aspartic Proteinases
pdb|2ER0|E Chain E, X-Ray Studies Of Aspartic Proteinase-Statine Inhibitor
Complexes
pdb|2ER6|E Chain E, The Structure Of A Synthetic Pepsin Inhibitor Complexed
With Endothiapepsin.
pdb|2ER7|E Chain E, X-Ray Analyses Of Aspartic Proteinases.Iii.
Three-Dimensional Structure Of Endothiapepsin Complexed
With A Transition-State Isostere Inhibitor Of Renin At
1.6 Angstroms Resolution
pdb|2ER9|E Chain E, X-Ray Studies Of Aspartic Proteinase-Statine Inhibitor
Complexes.
pdb|3ER3|E Chain E, The Active Site Of Aspartic Proteinases
pdb|3ER5|E Chain E, The Active Site Of Aspartic Proteinases
pdb|4ER1|E Chain E, The Active Site Of Aspartic Proteinases
pdb|4ER2|E Chain E, The Active Site Of Aspartic Proteinases
pdb|4ER4|E Chain E, High-Resolution X-Ray Analyses Of Renin Inhibitor-Aspartic
Proteinase Complexes
pdb|5ER1|E Chain E, A Rational Approach To The Design Of Antihypertensives.
X-Ray Studies Of Complexes Between Aspartic Proteinases
And Aminoalcohol Renin Inhibitors
pdb|5ER2|E Chain E, High-Resolution X-Ray Diffraction Study Of The Complex
Between Endothiapepsin And An Oligopeptide Inhibitor.
The Analysis Of The Inhibitor Binding And Description Of
The Rigid Body Shift In The Enzyme
pdb|1EED|P Chain P, X-Ray Crystallographic Analysis Of Inhibition Of
Endothiapepsin By Cyclohexyl Renin Inhibitors
pdb|1ENT|E Chain E, X-Ray Analyses Of Aspartic Proteinases. The
Three-Dimensional Structure At 2.1 Angstroms Resolution
Of Endothiapepsin
pdb|1EPL|E Chain E, A Structural Comparison Of 21 Inhibitor Complexes Of The
Aspartic Proteinase From Endothia Parasitica
pdb|1EPM|E Chain E, A Structural Comparison Of 21 Inhibitor Complexes Of The
Aspartic Proteinase From Endothia Parasitica
pdb|1EPN|E Chain E, A Structural Comparison Of 21 Inhibitor Complexes Of The
Aspartic Proteinase From Endothia Parasitica
pdb|1EPO|E Chain E, Endothia Aspartic Proteinase (Endothiapepsin) Complexed
With Cp-81,282 (Mor Phe Nle Chf Nme)
pdb|1EPP|E Chain E, Endothia Aspartic Proteinase (endothiapepsin) Complexed
With Pd-130, 693 (mas Phe Lys+mtf Sta Mba)
pdb|1EPQ|E Chain E, Endothia Aspartic Proteinase (Endothiapepsin) Complexed
With Pd-133, 450 (Sot Phe Gly+scc Gcl)
pdb|1E5O|E Chain E, Endothiapepsin Complex With Inhibitor Db2
pdb|1E81|E Chain E, Endothiapepsin Complex With Renin Inhibitor
Merck-Kgaa-Emd61395
pdb|1E82|E Chain E, Endothiapepsin Complex With Renin Inhibitor
Merck-Kgaa-Emd59601
pdb|1E80|E Chain E, Endothiapepsin Complex With Renin Inhibitor
Merck-Kgaa-Emd56133
pdb|1OD1|A Chain A, Endothiapepsin Pd135,040 Complex
pdb|4APE|A Chain A, The Active Site Of Aspartic Proteinases
pdb|2V00|A Chain A, X-Ray Crystal Structure Of Endothiapepsin Complexed With
Compound 1
pdb|3LZY|A Chain A, Crystal Structure Of Endothiapesin In Complex With Xenon
pdb|3PB5|A Chain A, Endothiapepsin In Complex With A Fragment
pdb|3PBD|A Chain A, Endothiapepsin In Complex With A Fragment
pdb|3PBZ|A Chain A, Endothiapepsin In Complex With A Fragment
pdb|3PCW|A Chain A, Endothiapepsin In Complex With A Fragment
pdb|3PCZ|A Chain A, Endothiapepsin In Complex With Benzamidine
pdb|3PGI|A Chain A, Endothiapepsin In Complex With A Fragment
pdb|3PRS|A Chain A, Endothiapepsin In Complex With Ritonavir
pdb|3PI0|A Chain A, Endothiapepsin In Complex With A Fragment
pdb|3PLD|A Chain A, Endothiapepsin In Complex With A Fragment
pdb|3PLL|A Chain A, Endothiapepsin In Complex With A Fragment
pdb|3PM4|A Chain A, Endothiapepsin In Complex With A Fragment
pdb|3PMU|A Chain A, Endothiapepsin In Complex With A Fragment
pdb|3PMY|A Chain A, Endothiapepsin In Complex With A Fragment
pdb|3PSY|A Chain A, Endothiapepsin In Complex With An Inhibitor Based On The
Gewald Reaction
pdb|3PWW|A Chain A, Endothiapepsin In Complex With Saquinavir
pdb|3Q6Y|A Chain A, Endothiapepsin In Complex With A Pyrrolidine Based
Inhibitor
pdb|3T6I|A Chain A, Endothiapepsin In Complex With An Azepin Derivative
pdb|3T7P|A Chain A, Endothiapepsin In Complex With A Hydrazide Derivative
pdb|3T7Q|A Chain A, Endothiapepsin In Complex With An Inhibitor Based On The
Gewald Reaction
pdb|3T7X|A Chain A, Endothiapepsin In Complex With An Inhibitor Based On The
Gewald Reaction
Length = 330
Score = 28.1 bits (61), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 33/73 (45%), Gaps = 9/73 (12%)
Query: 21 GSVRFQSTSIDGVDHVWTQL-----TKKNAVYSRVARVCKSDKGGPHHFGDRWT----TF 71
GS F+STSIDG+ T L T +A +++V+ S G + F T TF
Sbjct: 205 GSGTFKSTSIDGIADTGTTLLYLPATVVSAYWAQVSGAKSSSSVGGYVFPCSATLPSFTF 264
Query: 72 LKSRLNCSVPGDY 84
+PGDY
Sbjct: 265 GVGSARIVIPGDY 277
>pdb|2WPM|S Chain S, Factor Ixa Superactive Mutant, Egr-Cmk Inhibited
Length = 235
Score = 27.7 bits (60), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 19/38 (50%), Gaps = 4/38 (10%)
Query: 54 CKSDKGGPHHFGDRWTTFLKSRLN----CSVPGDYPFY 87
C+ D GGPH T+FL ++ C++ G Y Y
Sbjct: 181 CQGDSGGPHVTEVEGTSFLTGIISWGEECAMKGKYGIY 218
>pdb|2WPI|S Chain S, Factor Ixa Superactive Double Mutant
Length = 235
Score = 27.7 bits (60), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 19/38 (50%), Gaps = 4/38 (10%)
Query: 54 CKSDKGGPHHFGDRWTTFLKSRLN----CSVPGDYPFY 87
C+ D GGPH T+FL ++ C++ G Y Y
Sbjct: 181 CQGDSGGPHVTEVEGTSFLTGIISWGEECAMKGKYGIY 218
>pdb|2WPH|S Chain S, Factor Ixa Superactive Triple Mutant
pdb|2WPJ|S Chain S, Factor Ixa Superactive Triple Mutant, Nacl-Soaked
pdb|2WPK|S Chain S, Factor Ixa Superactive Triple Mutant, Ethylene
Glycol-Soaked
pdb|2WPL|S Chain S, Factor Ixa Superactive Triple Mutant, Edta-Soaked
Length = 235
Score = 27.7 bits (60), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 19/38 (50%), Gaps = 4/38 (10%)
Query: 54 CKSDKGGPHHFGDRWTTFLKSRLN----CSVPGDYPFY 87
C+ D GGPH T+FL ++ C++ G Y Y
Sbjct: 181 CQGDSGGPHVTEVEGTSFLTGIISWGEECAMKGKYGIY 218
>pdb|1RFN|A Chain A, Human Coagulation Factor Ixa In Complex With P-Amino
Benzamidine
pdb|3LC3|A Chain A, Benzothiophene Inhibitors Of Factor Ixa
pdb|3LC3|C Chain C, Benzothiophene Inhibitors Of Factor Ixa
pdb|3LC5|A Chain A, Selective Benzothiophine Inhibitors Of Factor Ixa
Length = 235
Score = 27.7 bits (60), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 19/38 (50%), Gaps = 4/38 (10%)
Query: 54 CKSDKGGPHHFGDRWTTFLKSRLN----CSVPGDYPFY 87
C+ D GGPH T+FL ++ C++ G Y Y
Sbjct: 181 CQGDSGGPHVTEVEGTSFLTGIISWGEECAMKGKYGIY 218
>pdb|3KCG|H Chain H, Crystal Structure Of The Antithrombin-Factor Ixa-
Pentasaccharide Complex
Length = 235
Score = 27.7 bits (60), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 19/38 (50%), Gaps = 4/38 (10%)
Query: 54 CKSDKGGPHHFGDRWTTFLKSRLN----CSVPGDYPFY 87
C+ D GGPH T+FL ++ C++ G Y Y
Sbjct: 181 CQGDAGGPHVTEVEGTSFLTGIISWGEECAMKGKYGIY 218
>pdb|4EIP|A Chain A, Native And K252c Bound Rebc-10x
pdb|4EIP|B Chain B, Native And K252c Bound Rebc-10x
pdb|4EIQ|A Chain A, Chromopyrrolic Acid-Soaked Rebc-10x With Bound
7-Carboxy-K252c
pdb|4EIQ|B Chain B, Chromopyrrolic Acid-Soaked Rebc-10x With Bound
7-Carboxy-K252c
Length = 549
Score = 26.9 bits (58), Expect = 3.7, Method: Composition-based stats.
Identities = 12/32 (37%), Positives = 17/32 (53%)
Query: 5 HTWSTPSLDEVNLCCRGSVRFQSTSIDGVDHV 36
H W TP+ ++L RG V + DGV+ V
Sbjct: 458 HAWLTPTTSTLDLFGRGFVLLSFGTTDGVEAV 489
>pdb|2R0C|A Chain A, Structure Of The Substrate-Free Form Of The Rebeccamycin
Biosynthetic Enzyme Rebc
pdb|2R0G|A Chain A, Chromopyrrolic Acid-Soaked Rebc With Bound 7-Carboxy-K252c
pdb|2R0G|B Chain B, Chromopyrrolic Acid-Soaked Rebc With Bound 7-Carboxy-K252c
pdb|2R0P|A Chain A, K252c-Soaked Rebc
pdb|3EPT|A Chain A, Structure Of The Rebeccamycin Biosynthetic Enzyme Rebc
With Reduced Flavin
pdb|3EPT|B Chain B, Structure Of The Rebeccamycin Biosynthetic Enzyme Rebc
With Reduced Flavin
Length = 549
Score = 26.9 bits (58), Expect = 3.7, Method: Composition-based stats.
Identities = 12/32 (37%), Positives = 17/32 (53%)
Query: 5 HTWSTPSLDEVNLCCRGSVRFQSTSIDGVDHV 36
H W TP+ ++L RG V + DGV+ V
Sbjct: 458 HAWLTPTTSTLDLFGRGFVLLSFGTTDGVEAV 489
>pdb|2F91|A Chain A, 1.2a Resolution Structure Of A Crayfish Trypsin Complexed
With A Peptide Inhibitor, Sgti
Length = 237
Score = 26.9 bits (58), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 21/43 (48%), Gaps = 5/43 (11%)
Query: 54 CKSDKGGPHHFGDRWTTFLKSRL----NCSVPGDYPFYFDEIR 92
C+ D GGP D +T+L + C+ PG YP + E+
Sbjct: 185 CQGDSGGPLAASDTGSTYLAGIVSWGYGCARPG-YPGVYTEVS 226
>pdb|3FAW|A Chain A, Crystal Structure Of The Group B Streptococcus Pullulanase
Sap
pdb|3FAX|A Chain A, The Crystal Structure Of Gbs Pullulanase Sap In Complex
With Maltotetraose
Length = 877
Score = 26.6 bits (57), Expect = 4.8, Method: Composition-based stats.
Identities = 25/86 (29%), Positives = 36/86 (41%), Gaps = 13/86 (15%)
Query: 27 STSIDGVDHVWTQLTKKNAVYSRVARVCKSDKGGPHHFGDRWTTFLKSRLNCSVPGDYPF 86
S S D V + +N V + V K++KG W T L ++L Y +
Sbjct: 152 SPSADSVTMIIYDKDNQNRVVATTPLV-KNNKG-------VWQTILDTKLGIKNYTGY-Y 202
Query: 87 YFDEIRLPEDCVNLQDPYCA----WD 108
Y EI+ +D V + DPY WD
Sbjct: 203 YLYEIKRGKDKVKILDPYAKSLAEWD 228
>pdb|3LMW|A Chain A, Crystal Structure Of Iota-Carrageenase Family Gh82 From A.
Fortis In Absence Of Chloride Ions
pdb|3LMW|B Chain B, Crystal Structure Of Iota-Carrageenase Family Gh82 From A.
Fortis In Absence Of Chloride Ions
Length = 473
Score = 25.8 bits (55), Expect = 9.2, Method: Composition-based stats.
Identities = 17/66 (25%), Positives = 29/66 (43%), Gaps = 3/66 (4%)
Query: 16 NLCCRGSVRFQSTSID---GVDHVWTQLTKKNAVYSRVARVCKSDKGGPHHFGDRWTTFL 72
++ C +VR S ++ D V T+ + K AV S++ R C + G RW +
Sbjct: 269 SVSCGSAVRSDSGFVELFSPTDEVHTRQSWKQAVESKLGRGCAQTPYARGNGGTRWAARV 328
Query: 73 KSRLNC 78
+ C
Sbjct: 329 TQKDAC 334
>pdb|1H80|A Chain A, 1,3-Alpha-1,4-Beta-D-Galactose-4-Sulfate-3,6-Anhydro-D-
Galactose-2-Sulfate 4 Galactohydrolase
pdb|1H80|B Chain B, 1,3-Alpha-1,4-Beta-D-Galactose-4-Sulfate-3,6-Anhydro-D-
Galactose-2-Sulfate 4 Galactohydrolase
pdb|1KTW|A Chain A, Iota-carrageenase Complexed To Iota-carrageenan Fragments
pdb|1KTW|B Chain B, Iota-carrageenase Complexed To Iota-carrageenan Fragments
Length = 464
Score = 25.8 bits (55), Expect = 9.4, Method: Composition-based stats.
Identities = 17/66 (25%), Positives = 29/66 (43%), Gaps = 3/66 (4%)
Query: 16 NLCCRGSVRFQSTSID---GVDHVWTQLTKKNAVYSRVARVCKSDKGGPHHFGDRWTTFL 72
++ C +VR S ++ D V T+ + K AV S++ R C + G RW +
Sbjct: 268 SVSCGSAVRSDSGFVELFSPTDEVHTRQSWKQAVESKLGRGCAQTPYARGNGGTRWAARV 327
Query: 73 KSRLNC 78
+ C
Sbjct: 328 TQKDAC 333
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.324 0.139 0.481
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,198,603
Number of Sequences: 62578
Number of extensions: 209589
Number of successful extensions: 595
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 566
Number of HSP's gapped (non-prelim): 43
length of query: 148
length of database: 14,973,337
effective HSP length: 90
effective length of query: 58
effective length of database: 9,341,317
effective search space: 541796386
effective search space used: 541796386
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 47 (22.7 bits)